Multiple sequence alignment - TraesCS4D01G053600

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS4D01G053600 chr4D 100.000 7834 0 0 1 7834 29797677 29805510 0.000000e+00 14467.0
1 TraesCS4D01G053600 chr4B 91.887 2083 118 17 1 2040 42316684 42318758 0.000000e+00 2863.0
2 TraesCS4D01G053600 chr4B 92.933 1500 54 19 2129 3602 42319182 42320655 0.000000e+00 2135.0
3 TraesCS4D01G053600 chr4B 92.058 1171 72 12 6063 7222 42323345 42324505 0.000000e+00 1628.0
4 TraesCS4D01G053600 chr4B 89.162 1098 81 23 3828 4904 42320976 42322056 0.000000e+00 1334.0
5 TraesCS4D01G053600 chr4B 86.607 448 39 11 7318 7753 42325056 42325494 7.110000e-130 475.0
6 TraesCS4D01G053600 chr4B 94.505 273 13 2 5800 6071 42323042 42323313 3.380000e-113 420.0
7 TraesCS4D01G053600 chr4B 86.008 243 32 2 5112 5353 42322125 42322366 7.800000e-65 259.0
8 TraesCS4D01G053600 chr4B 93.706 143 8 1 3596 3738 42320839 42320980 6.160000e-51 213.0
9 TraesCS4D01G053600 chr4B 94.203 69 4 0 3901 3969 42321079 42321147 1.080000e-18 106.0
10 TraesCS4D01G053600 chr4B 93.878 49 3 0 3731 3779 82163466 82163418 3.030000e-09 75.0
11 TraesCS4D01G053600 chr4A 89.986 2077 137 24 1 2040 573366393 573364351 0.000000e+00 2617.0
12 TraesCS4D01G053600 chr4A 98.773 1304 15 1 2131 3434 573363925 573362623 0.000000e+00 2318.0
13 TraesCS4D01G053600 chr4A 95.821 1364 41 8 4981 6339 573360595 573359243 0.000000e+00 2189.0
14 TraesCS4D01G053600 chr4A 98.652 1187 16 0 3824 5010 573361785 573360599 0.000000e+00 2104.0
15 TraesCS4D01G053600 chr4A 89.081 1502 94 24 6341 7834 573359098 573357659 0.000000e+00 1801.0
16 TraesCS4D01G053600 chr4A 96.639 595 16 2 3432 4026 573362372 573361782 0.000000e+00 985.0
17 TraesCS4D01G053600 chr4A 91.531 614 47 5 2135 2747 624996422 624995813 0.000000e+00 841.0
18 TraesCS4D01G053600 chr4A 90.660 621 54 4 2128 2747 647415763 647416380 0.000000e+00 822.0
19 TraesCS4D01G053600 chr4A 90.391 614 55 4 2135 2747 728673653 728673043 0.000000e+00 804.0
20 TraesCS4D01G053600 chr4A 83.960 692 77 18 3989 4652 647090515 647089830 3.990000e-177 632.0
21 TraesCS4D01G053600 chr4A 86.755 453 48 10 2777 3225 728228650 728229094 1.960000e-135 494.0
22 TraesCS4D01G053600 chr4A 83.149 451 51 11 2777 3224 647416381 647416809 9.530000e-104 388.0
23 TraesCS4D01G053600 chr4A 82.927 451 52 11 2777 3224 728673042 728672614 4.440000e-102 383.0
24 TraesCS4D01G053600 chr4A 83.113 379 46 12 6142 6514 647088374 647088008 5.860000e-86 329.0
25 TraesCS4D01G053600 chr4A 82.581 310 38 7 5739 6047 647088662 647088368 7.800000e-65 259.0
26 TraesCS4D01G053600 chr4A 82.609 276 42 5 6237 6507 647050793 647050519 1.020000e-58 239.0
27 TraesCS4D01G053600 chr4A 86.413 184 24 1 4703 4886 647089820 647089638 4.790000e-47 200.0
28 TraesCS4D01G053600 chr4A 80.972 247 38 7 6599 6837 646974628 646974383 3.730000e-43 187.0
29 TraesCS4D01G053600 chr4A 78.689 305 46 10 5746 6047 646842310 646842022 1.340000e-42 185.0
30 TraesCS4D01G053600 chr4A 79.377 257 40 11 6590 6837 647040142 647039890 1.350000e-37 169.0
31 TraesCS4D01G053600 chr4A 98.246 57 1 0 2039 2095 573363932 573363988 5.000000e-17 100.0
32 TraesCS4D01G053600 chr7D 86.463 916 118 6 2129 3040 40454252 40453339 0.000000e+00 1000.0
33 TraesCS4D01G053600 chr7D 83.333 696 78 19 3989 4652 40452320 40451631 6.720000e-170 608.0
34 TraesCS4D01G053600 chr7D 83.548 310 34 7 5739 6047 40450470 40450177 2.790000e-69 274.0
35 TraesCS4D01G053600 chr7D 84.337 249 26 9 6599 6837 40449752 40449507 1.700000e-56 231.0
36 TraesCS4D01G053600 chr7D 85.870 184 25 1 4703 4886 40451621 40451439 2.230000e-45 195.0
37 TraesCS4D01G053600 chr7D 83.838 99 6 4 3736 3834 264490982 264491070 1.400000e-12 86.1
38 TraesCS4D01G053600 chr7A 86.465 894 116 5 2151 3040 40365594 40364702 0.000000e+00 976.0
39 TraesCS4D01G053600 chr7A 83.976 674 76 16 4004 4652 40363598 40362932 1.120000e-172 617.0
40 TraesCS4D01G053600 chr7A 81.350 311 41 8 5739 6047 40361815 40361520 3.650000e-58 237.0
41 TraesCS4D01G053600 chr7A 88.889 153 17 0 4734 4886 40362893 40362741 1.040000e-43 189.0
42 TraesCS4D01G053600 chr7A 82.000 100 10 8 3731 3830 543342823 543342914 2.340000e-10 78.7
43 TraesCS4D01G053600 chr7A 81.443 97 15 2 3735 3831 510549995 510549902 8.430000e-10 76.8
44 TraesCS4D01G053600 chr1B 91.304 621 50 4 2128 2747 683494788 683494171 0.000000e+00 845.0
45 TraesCS4D01G053600 chr1A 91.129 620 52 3 2128 2747 464241657 464241041 0.000000e+00 837.0
46 TraesCS4D01G053600 chr1A 82.927 82 14 0 4083 4164 549704141 549704222 3.030000e-09 75.0
47 TraesCS4D01G053600 chr5A 90.016 621 52 8 2609 3225 198150827 198150213 0.000000e+00 795.0
48 TraesCS4D01G053600 chr5A 89.347 291 23 3 3981 4268 198149529 198149244 7.470000e-95 359.0
49 TraesCS4D01G053600 chr5A 94.231 52 3 0 3779 3830 617623311 617623362 6.520000e-11 80.5
50 TraesCS4D01G053600 chr5A 83.544 79 6 2 3828 3899 198149653 198149575 5.070000e-07 67.6
51 TraesCS4D01G053600 chr5A 89.796 49 5 0 3828 3876 679649553 679649601 6.560000e-06 63.9
52 TraesCS4D01G053600 chrUn 100.000 404 0 0 2681 3084 478354869 478354466 0.000000e+00 747.0
53 TraesCS4D01G053600 chrUn 82.143 168 25 3 6155 6319 96703164 96703329 1.060000e-28 139.0
54 TraesCS4D01G053600 chr2B 78.423 913 153 33 4004 4886 548948052 548948950 8.880000e-154 555.0
55 TraesCS4D01G053600 chr2B 84.058 345 51 3 6165 6507 548950366 548950708 5.860000e-86 329.0
56 TraesCS4D01G053600 chr2B 84.959 246 27 7 6603 6840 548951053 548951296 2.820000e-59 241.0
57 TraesCS4D01G053600 chr2B 92.157 51 4 0 3729 3779 716971376 716971426 1.090000e-08 73.1
58 TraesCS4D01G053600 chr2D 79.136 671 102 25 5870 6507 470209478 470210143 5.620000e-116 429.0
59 TraesCS4D01G053600 chr2D 86.585 246 23 8 6603 6840 470210279 470210522 6.030000e-66 263.0
60 TraesCS4D01G053600 chr2D 83.036 112 16 3 6155 6265 49060852 49060743 1.800000e-16 99.0
61 TraesCS4D01G053600 chr2A 82.370 346 55 5 6165 6507 611939905 611940247 5.940000e-76 296.0
62 TraesCS4D01G053600 chr2A 85.830 247 28 5 6599 6838 611940377 611940623 1.010000e-63 255.0
63 TraesCS4D01G053600 chr7B 82.407 108 8 4 3725 3832 37506885 37506789 5.040000e-12 84.2
64 TraesCS4D01G053600 chr3A 82.692 104 7 3 3727 3830 113364046 113364138 1.810000e-11 82.4
65 TraesCS4D01G053600 chr3A 82.692 104 7 3 3727 3830 714035419 714035511 1.810000e-11 82.4
66 TraesCS4D01G053600 chr3A 82.418 91 14 2 3735 3825 654588164 654588252 2.340000e-10 78.7
67 TraesCS4D01G053600 chr1D 82.927 82 14 0 4083 4164 457050142 457050223 3.030000e-09 75.0
68 TraesCS4D01G053600 chr6D 80.000 100 17 3 3735 3833 469940953 469940856 3.920000e-08 71.3


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4D01G053600 chr4D 29797677 29805510 7833 False 14467.000000 14467 100.000000 1 7834 1 chr4D.!!$F1 7833
1 TraesCS4D01G053600 chr4B 42316684 42325494 8810 False 1048.111111 2863 91.229889 1 7753 9 chr4B.!!$F1 7752
2 TraesCS4D01G053600 chr4A 573357659 573366393 8734 True 2002.333333 2617 94.825333 1 7834 6 chr4A.!!$R6 7833
3 TraesCS4D01G053600 chr4A 624995813 624996422 609 True 841.000000 841 91.531000 2135 2747 1 chr4A.!!$R1 612
4 TraesCS4D01G053600 chr4A 647415763 647416809 1046 False 605.000000 822 86.904500 2128 3224 2 chr4A.!!$F3 1096
5 TraesCS4D01G053600 chr4A 728672614 728673653 1039 True 593.500000 804 86.659000 2135 3224 2 chr4A.!!$R8 1089
6 TraesCS4D01G053600 chr4A 647088008 647090515 2507 True 355.000000 632 84.016750 3989 6514 4 chr4A.!!$R7 2525
7 TraesCS4D01G053600 chr7D 40449507 40454252 4745 True 461.600000 1000 84.710200 2129 6837 5 chr7D.!!$R1 4708
8 TraesCS4D01G053600 chr7A 40361520 40365594 4074 True 504.750000 976 85.170000 2151 6047 4 chr7A.!!$R2 3896
9 TraesCS4D01G053600 chr1B 683494171 683494788 617 True 845.000000 845 91.304000 2128 2747 1 chr1B.!!$R1 619
10 TraesCS4D01G053600 chr1A 464241041 464241657 616 True 837.000000 837 91.129000 2128 2747 1 chr1A.!!$R1 619
11 TraesCS4D01G053600 chr5A 198149244 198150827 1583 True 407.200000 795 87.635667 2609 4268 3 chr5A.!!$R1 1659
12 TraesCS4D01G053600 chr2B 548948052 548951296 3244 False 375.000000 555 82.480000 4004 6840 3 chr2B.!!$F2 2836
13 TraesCS4D01G053600 chr2D 470209478 470210522 1044 False 346.000000 429 82.860500 5870 6840 2 chr2D.!!$F1 970
14 TraesCS4D01G053600 chr2A 611939905 611940623 718 False 275.500000 296 84.100000 6165 6838 2 chr2A.!!$F1 673

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
622 655 0.038892 GACCAACGCGAGACCTACAA 60.039 55.000 15.93 0.0 0.00 2.41 F
824 860 0.389948 CCTAACGTCAGTGGCAGGTC 60.390 60.000 0.00 0.0 0.00 3.85 F
1375 1424 0.395724 AAATGGCCGGATCCAAGGAC 60.396 55.000 13.41 8.7 39.96 3.85 F
2118 2552 0.107643 GTAATCTGCCCCCTCTGCTC 59.892 60.000 0.00 0.0 0.00 4.26 F
2119 2553 1.056700 TAATCTGCCCCCTCTGCTCC 61.057 60.000 0.00 0.0 0.00 4.70 F
2126 2560 1.311403 CCCCTCTGCTCCCTCAGTA 59.689 63.158 0.00 0.0 35.63 2.74 F
3781 4924 4.645535 AGCATTGTTCACACTACACTGAT 58.354 39.130 0.00 0.0 30.34 2.90 F
4713 6177 2.200792 TGTTTGTGGCACATGTTTCG 57.799 45.000 22.73 0.0 44.52 3.46 F
5422 7278 1.768275 TCAACACATCCACCTGAGTGT 59.232 47.619 0.00 0.0 46.24 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1681 1730 0.036577 GTGTCAGCAGCTCATCCAGT 60.037 55.000 0.00 0.0 0.00 4.00 R
2099 2533 0.107643 GAGCAGAGGGGGCAGATTAC 59.892 60.000 0.00 0.0 0.00 1.89 R
3266 3773 2.459644 TCCAAGAATCCTGGCAAATGG 58.540 47.619 0.00 0.0 0.00 3.16 R
3662 4805 1.139989 CAGTGTCAGGTACGCAACAG 58.860 55.000 0.00 0.0 41.29 3.16 R
3859 5002 3.702330 TCGGTATACATCTGAGCAAACG 58.298 45.455 5.01 0.0 0.00 3.60 R
3930 5341 8.936864 ACATAAAGTACTCAGGAAGAAAAATCG 58.063 33.333 0.00 0.0 0.00 3.34 R
5098 6635 0.678950 TGTCAGCGGAGATTGTGACA 59.321 50.000 0.00 0.0 45.39 3.58 R
6391 9046 0.605319 TGATCCGTCCCTGCAACAAC 60.605 55.000 0.00 0.0 0.00 3.32 R
6997 9910 0.880278 CAGTACACACTGCAACGCCT 60.880 55.000 0.00 0.0 45.44 5.52 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 75 2.903855 GCCTCCCATCCACGCATG 60.904 66.667 0.00 0.00 0.00 4.06
88 89 4.343323 CATGCACCCGTCCCACCA 62.343 66.667 0.00 0.00 0.00 4.17
90 91 2.917897 ATGCACCCGTCCCACCATT 61.918 57.895 0.00 0.00 0.00 3.16
108 109 2.033602 GACCAACCCCAACCTCCG 59.966 66.667 0.00 0.00 0.00 4.63
116 117 2.671070 CCAACCTCCGCATCCAGT 59.329 61.111 0.00 0.00 0.00 4.00
125 126 2.436646 GCATCCAGTCCCACCACG 60.437 66.667 0.00 0.00 0.00 4.94
136 137 2.505777 CACCACGCAGCGAGAGAG 60.506 66.667 24.65 7.26 0.00 3.20
143 144 3.074999 GCAGCGAGAGAGGGTCCAG 62.075 68.421 0.00 0.00 0.00 3.86
302 314 1.219935 GATTTACCGTCCGGCAGGT 59.780 57.895 21.45 21.45 44.08 4.00
355 367 2.579201 CCCGCTGACCACGATCTT 59.421 61.111 0.00 0.00 0.00 2.40
358 370 2.456119 CGCTGACCACGATCTTGCC 61.456 63.158 0.00 0.00 0.00 4.52
392 405 2.035783 GAAACCCCAGCCACCTCC 59.964 66.667 0.00 0.00 0.00 4.30
439 452 4.737601 GCAACGCGCGAATTTACT 57.262 50.000 39.36 9.38 0.00 2.24
510 523 0.976641 TGGCAGTTCCGTGAATCTCT 59.023 50.000 0.00 0.00 37.80 3.10
546 559 1.149101 TGAAGTTTCTCTGCCCCCTT 58.851 50.000 0.00 0.00 0.00 3.95
622 655 0.038892 GACCAACGCGAGACCTACAA 60.039 55.000 15.93 0.00 0.00 2.41
625 658 1.080974 AACGCGAGACCTACAACGG 60.081 57.895 15.93 0.00 0.00 4.44
757 792 3.975083 TTCCCGAATCACCGCGACG 62.975 63.158 8.23 0.00 0.00 5.12
762 797 2.357034 AATCACCGCGACGTGCTT 60.357 55.556 8.23 2.86 43.27 3.91
791 826 1.301716 CACCGACTTGTGGGGTCAG 60.302 63.158 6.75 0.00 33.73 3.51
810 846 1.633945 AGGAATGTGGTGGACCCTAAC 59.366 52.381 0.00 0.00 34.29 2.34
820 856 1.669440 GACCCTAACGTCAGTGGCA 59.331 57.895 0.00 0.00 32.74 4.92
824 860 0.389948 CCTAACGTCAGTGGCAGGTC 60.390 60.000 0.00 0.00 0.00 3.85
884 920 1.857348 CCCAACCCTTCTCCCCCTT 60.857 63.158 0.00 0.00 0.00 3.95
896 932 5.457052 CCTTCTCCCCCTTAGTAAAAACACA 60.457 44.000 0.00 0.00 0.00 3.72
1210 1255 8.575649 AAACCTTCCGATTTAATACAGATGTT 57.424 30.769 0.00 0.00 0.00 2.71
1238 1283 4.226384 GCATTCCATTTCCTATTTCCCCT 58.774 43.478 0.00 0.00 0.00 4.79
1305 1354 3.120121 GCGATTTGTGCATCTTGTTTGTC 59.880 43.478 0.00 0.00 0.00 3.18
1312 1361 2.290367 TGCATCTTGTTTGTCGAGGTTG 59.710 45.455 0.00 0.00 0.00 3.77
1347 1396 4.414852 CCTGAATCTGGTTATTTTGTGCG 58.585 43.478 0.00 0.00 0.00 5.34
1351 1400 6.507900 TGAATCTGGTTATTTTGTGCGAAAA 58.492 32.000 0.00 0.00 0.00 2.29
1375 1424 0.395724 AAATGGCCGGATCCAAGGAC 60.396 55.000 13.41 8.70 39.96 3.85
1524 1573 0.820074 CCTCTGCCTATCGACCTCGT 60.820 60.000 0.00 0.00 40.80 4.18
1543 1592 3.003478 GCCAAGAACGGCGATACG 58.997 61.111 16.62 0.00 43.52 3.06
1604 1653 2.404559 TGTATCAGGCCCGGATTAAGT 58.595 47.619 12.33 0.00 0.00 2.24
1612 1661 2.037381 GGCCCGGATTAAGTTAGAGGAG 59.963 54.545 0.73 0.00 0.00 3.69
1681 1730 1.066908 CCGAAGGCAAAGTTCAGCAAA 59.933 47.619 3.12 0.00 46.14 3.68
1726 1775 7.978414 CAGACACAGCTCTATTCTGAATTTCTA 59.022 37.037 8.38 0.00 36.58 2.10
1772 1821 1.136984 GTACGCGTCTCCCACTCTG 59.863 63.158 18.63 0.00 0.00 3.35
2040 2092 5.525012 GCAGATGTCTTGCTTGTCATATACA 59.475 40.000 0.00 0.00 35.88 2.29
2042 2094 7.386025 GCAGATGTCTTGCTTGTCATATACATA 59.614 37.037 0.00 0.00 38.10 2.29
2043 2095 9.264719 CAGATGTCTTGCTTGTCATATACATAA 57.735 33.333 0.00 0.00 38.10 1.90
2045 2097 8.613060 ATGTCTTGCTTGTCATATACATAAGG 57.387 34.615 0.00 0.00 38.10 2.69
2047 2099 7.710907 TGTCTTGCTTGTCATATACATAAGGTC 59.289 37.037 0.00 0.00 38.10 3.85
2048 2100 7.928706 GTCTTGCTTGTCATATACATAAGGTCT 59.071 37.037 0.00 0.00 38.10 3.85
2053 2487 9.077674 GCTTGTCATATACATAAGGTCTAATCG 57.922 37.037 0.00 0.00 38.10 3.34
2067 2501 6.459066 AGGTCTAATCGATGTACATGGATTG 58.541 40.000 36.67 28.99 43.14 2.67
2068 2502 5.120830 GGTCTAATCGATGTACATGGATTGC 59.879 44.000 36.67 28.58 43.14 3.56
2069 2503 5.928839 GTCTAATCGATGTACATGGATTGCT 59.071 40.000 36.67 23.58 43.14 3.91
2070 2504 6.425114 GTCTAATCGATGTACATGGATTGCTT 59.575 38.462 36.67 23.77 43.14 3.91
2071 2505 6.992123 TCTAATCGATGTACATGGATTGCTTT 59.008 34.615 36.67 23.50 43.14 3.51
2073 2507 5.484173 TCGATGTACATGGATTGCTTTTC 57.516 39.130 14.43 0.00 0.00 2.29
2074 2508 4.335315 TCGATGTACATGGATTGCTTTTCC 59.665 41.667 14.43 0.00 0.00 3.13
2076 2510 5.527214 CGATGTACATGGATTGCTTTTCCTA 59.473 40.000 14.43 0.00 34.17 2.94
2078 2512 7.387673 CGATGTACATGGATTGCTTTTCCTATA 59.612 37.037 14.43 0.00 34.17 1.31
2079 2513 9.236006 GATGTACATGGATTGCTTTTCCTATAT 57.764 33.333 14.43 0.00 34.17 0.86
2106 2540 7.883391 TCTTCTAACTACCCTCAGTAATCTG 57.117 40.000 0.00 0.00 42.54 2.90
2107 2541 6.321690 TCTTCTAACTACCCTCAGTAATCTGC 59.678 42.308 0.00 0.00 41.10 4.26
2108 2542 4.894114 TCTAACTACCCTCAGTAATCTGCC 59.106 45.833 0.00 0.00 41.10 4.85
2109 2543 2.399580 ACTACCCTCAGTAATCTGCCC 58.600 52.381 0.00 0.00 41.10 5.36
2110 2544 1.694696 CTACCCTCAGTAATCTGCCCC 59.305 57.143 0.00 0.00 41.10 5.80
2111 2545 0.988678 ACCCTCAGTAATCTGCCCCC 60.989 60.000 0.00 0.00 41.10 5.40
2112 2546 0.695803 CCCTCAGTAATCTGCCCCCT 60.696 60.000 0.00 0.00 41.10 4.79
2113 2547 0.761802 CCTCAGTAATCTGCCCCCTC 59.238 60.000 0.00 0.00 41.10 4.30
2114 2548 1.694048 CCTCAGTAATCTGCCCCCTCT 60.694 57.143 0.00 0.00 41.10 3.69
2115 2549 1.415659 CTCAGTAATCTGCCCCCTCTG 59.584 57.143 0.00 0.00 41.10 3.35
2116 2550 0.179034 CAGTAATCTGCCCCCTCTGC 60.179 60.000 0.00 0.00 34.79 4.26
2117 2551 0.327000 AGTAATCTGCCCCCTCTGCT 60.327 55.000 0.00 0.00 0.00 4.24
2118 2552 0.107643 GTAATCTGCCCCCTCTGCTC 59.892 60.000 0.00 0.00 0.00 4.26
2119 2553 1.056700 TAATCTGCCCCCTCTGCTCC 61.057 60.000 0.00 0.00 0.00 4.70
2124 2558 2.767496 CCCCCTCTGCTCCCTCAG 60.767 72.222 0.00 0.00 35.46 3.35
2125 2559 2.040278 CCCCTCTGCTCCCTCAGT 59.960 66.667 0.00 0.00 35.63 3.41
2126 2560 1.311403 CCCCTCTGCTCCCTCAGTA 59.689 63.158 0.00 0.00 35.63 2.74
2541 2975 5.126067 AGTTGTGATTCACTGTGCTTAGTT 58.874 37.500 17.26 0.00 35.11 2.24
3662 4805 5.066505 ACACATTTATCGGCTTCCTGATTTC 59.933 40.000 0.00 0.00 0.00 2.17
3744 4887 6.271391 TCAAGTTTTATCTTGTACTCCCTCCA 59.729 38.462 6.38 0.00 43.44 3.86
3762 4905 5.429762 CCCTCCATCCCATAATATAAGAGCA 59.570 44.000 0.00 0.00 0.00 4.26
3765 4908 7.501559 CCTCCATCCCATAATATAAGAGCATTG 59.498 40.741 0.00 0.00 0.00 2.82
3781 4924 4.645535 AGCATTGTTCACACTACACTGAT 58.354 39.130 0.00 0.00 30.34 2.90
3930 5341 7.359595 TGTGATGTTTTTGTTACACAGATAGC 58.640 34.615 0.00 0.00 34.19 2.97
4295 5734 7.438160 TGCATGTCTAACTGCATACTTACATAC 59.562 37.037 0.00 0.00 43.11 2.39
4319 5758 8.261492 ACTTCAATCTGTGCAGAAGTAAATAG 57.739 34.615 13.37 3.30 46.25 1.73
4713 6177 2.200792 TGTTTGTGGCACATGTTTCG 57.799 45.000 22.73 0.00 44.52 3.46
4937 6439 6.404844 GCTTGTGTGCTCTGAGATAACTACTA 60.405 42.308 9.28 2.08 0.00 1.82
5138 6696 6.543465 TGACAATATAGAAACCTGCCAATCAG 59.457 38.462 0.00 0.00 42.49 2.90
5421 7277 2.549064 TCAACACATCCACCTGAGTG 57.451 50.000 0.00 0.00 44.12 3.51
5422 7278 1.768275 TCAACACATCCACCTGAGTGT 59.232 47.619 0.00 0.00 46.24 3.55
5535 7404 4.642437 TCTGTGCTAAGTATCTCACTGGAG 59.358 45.833 0.00 0.00 42.80 3.86
5584 7455 6.209788 AGCTAGTTGGTATAAGACTGGATAGC 59.790 42.308 0.00 0.00 32.25 2.97
5701 7574 5.106157 ACAACTACTGTCATTTTGCCTATGC 60.106 40.000 0.00 0.00 29.87 3.14
5871 8328 5.302059 TGGGTGTTGCTATCTCACTCTATAC 59.698 44.000 0.00 0.00 34.16 1.47
6053 8510 9.924650 TCTATCTGGAGAGTTTGTAGTTTTTAC 57.075 33.333 0.00 0.00 0.00 2.01
6133 8629 8.816640 TTGTTTGAATATTTCTTCTTTCCTGC 57.183 30.769 0.00 0.00 0.00 4.85
6202 8713 8.288208 CAGATAGCTTTCATTGCTGTTATAAGG 58.712 37.037 6.94 0.00 41.32 2.69
6204 8715 6.840780 AGCTTTCATTGCTGTTATAAGGTT 57.159 33.333 0.00 0.00 39.56 3.50
6308 8820 2.752903 AGTTCATGTTTATCGGTTGGCC 59.247 45.455 0.00 0.00 0.00 5.36
6391 9046 1.393726 CATCGACGCTCATCTTCTCG 58.606 55.000 0.00 0.00 0.00 4.04
6454 9109 3.192633 TGAAGCTAGAGCACGTTGTGATA 59.807 43.478 4.01 0.00 45.16 2.15
6529 9184 7.709149 AATATAAATATTTCTGCCCAGCCTC 57.291 36.000 3.39 0.00 28.99 4.70
6530 9185 2.371658 AATATTTCTGCCCAGCCTCC 57.628 50.000 0.00 0.00 0.00 4.30
6531 9186 1.225373 ATATTTCTGCCCAGCCTCCA 58.775 50.000 0.00 0.00 0.00 3.86
6571 9348 2.306341 ATCCAGTGATCGAACAGCAG 57.694 50.000 0.00 0.00 0.00 4.24
6586 9363 8.373048 TCGAACAGCAGAAGAAAAATACTTAA 57.627 30.769 0.00 0.00 0.00 1.85
6587 9364 8.999431 TCGAACAGCAGAAGAAAAATACTTAAT 58.001 29.630 0.00 0.00 0.00 1.40
6592 9469 9.055248 CAGCAGAAGAAAAATACTTAATGTTCG 57.945 33.333 0.00 0.00 0.00 3.95
6594 9471 9.052080 GCAGAAGAAAAATACTTAATGTTCGTC 57.948 33.333 0.00 0.00 0.00 4.20
6617 9521 0.690192 TGTCGAAAATGCAGGAGGGA 59.310 50.000 0.00 0.00 0.00 4.20
6863 9773 3.314331 CTCCAGTGACCGGCCTGT 61.314 66.667 0.00 0.00 0.00 4.00
6897 9807 1.839424 GCCTTGGTATTCTGGTGCTT 58.161 50.000 0.00 0.00 0.00 3.91
6963 9875 0.447801 GATGTGGACATGACAACGGC 59.552 55.000 0.00 0.00 36.57 5.68
6970 9882 1.933853 GACATGACAACGGCATCCTAC 59.066 52.381 0.00 0.00 0.00 3.18
6997 9910 4.279169 CCCTAAGTAATTATGGACGACCGA 59.721 45.833 0.00 0.00 39.42 4.69
7015 9928 0.600255 GAGGCGTTGCAGTGTGTACT 60.600 55.000 0.00 0.00 37.75 2.73
7106 10019 2.183409 CCTTCATCCAAGGCAACCG 58.817 57.895 0.00 0.00 45.76 4.44
7108 10021 0.804989 CTTCATCCAAGGCAACCGAC 59.195 55.000 0.00 0.00 37.17 4.79
7109 10022 0.953471 TTCATCCAAGGCAACCGACG 60.953 55.000 0.00 0.00 37.17 5.12
7131 10044 5.990996 ACGACCTAGTAGCTATGTAAGACTC 59.009 44.000 0.00 0.00 0.00 3.36
7162 10078 6.597832 AGTAGTCTGTGCTGAATTAGTCTT 57.402 37.500 0.00 0.00 0.00 3.01
7165 10081 5.477510 AGTCTGTGCTGAATTAGTCTTGAG 58.522 41.667 0.00 0.00 0.00 3.02
7216 10132 5.175673 GCTGTGCTAATTTCTGGTGTTTTTC 59.824 40.000 0.00 0.00 0.00 2.29
7251 10596 0.181587 TGGACCGTGGCAGAAAAAGA 59.818 50.000 0.00 0.00 0.00 2.52
7253 10598 0.591659 GACCGTGGCAGAAAAAGACC 59.408 55.000 0.00 0.00 0.00 3.85
7319 10664 6.382919 ACTTAAAGAATGTTAGGCCCTACA 57.617 37.500 9.72 9.72 0.00 2.74
7325 10670 2.710096 TGTTAGGCCCTACAATCAGC 57.290 50.000 0.00 0.00 0.00 4.26
7356 10727 4.774660 AGGACAGTAGAGATACGGAAGA 57.225 45.455 0.00 0.00 0.00 2.87
7546 10925 8.255026 GCCTTTAGGACAGAAAAACTGATTTCG 61.255 40.741 0.00 0.00 42.64 3.46
7555 10934 6.954944 AGAAAAACTGATTTCGTTGATTCGA 58.045 32.000 0.00 0.00 42.73 3.71
7598 10979 6.560251 GCTTTATTAACGCACAATAATGCTGC 60.560 38.462 17.95 0.00 43.80 5.25
7643 11024 1.517257 GGCGATCTGGTGTGACTCG 60.517 63.158 0.00 0.00 0.00 4.18
7644 11025 1.213013 GCGATCTGGTGTGACTCGT 59.787 57.895 0.00 0.00 0.00 4.18
7652 11033 1.092921 GGTGTGACTCGTGTGGCAAA 61.093 55.000 0.00 0.00 0.00 3.68
7690 11071 2.981898 TCATCTTGCATCACCTCACTG 58.018 47.619 0.00 0.00 0.00 3.66
7726 11107 6.433847 TCCAAAAACAGTCTCTGAATCCTA 57.566 37.500 3.70 0.00 35.18 2.94
7731 11112 7.736447 AAAACAGTCTCTGAATCCTAAACTG 57.264 36.000 3.70 0.00 38.80 3.16
7745 11126 5.865085 TCCTAAACTGTGCAAGTGTCTATT 58.135 37.500 0.00 0.00 39.81 1.73
7750 11131 4.319177 ACTGTGCAAGTGTCTATTTCTCC 58.681 43.478 0.00 0.00 37.88 3.71
7756 11137 4.329256 GCAAGTGTCTATTTCTCCGGTTAC 59.671 45.833 0.00 0.00 0.00 2.50
7765 11146 2.431260 TCCGGTTACAAGTCGCGC 60.431 61.111 0.00 0.00 0.00 6.86
7768 11149 2.858158 GGTTACAAGTCGCGCACC 59.142 61.111 8.75 0.00 0.00 5.01
7784 11165 2.892425 CCGCTTCAGCCCGTCATC 60.892 66.667 0.00 0.00 37.91 2.92
7785 11166 2.185350 CGCTTCAGCCCGTCATCT 59.815 61.111 0.00 0.00 37.91 2.90
7789 11170 1.945819 GCTTCAGCCCGTCATCTTCAA 60.946 52.381 0.00 0.00 34.31 2.69
7799 11180 1.328986 GTCATCTTCAAGCTTAGCCGC 59.671 52.381 0.00 0.00 0.00 6.53
7809 11190 1.661821 CTTAGCCGCCGATCTTCCG 60.662 63.158 0.00 0.00 0.00 4.30
7815 11196 2.203209 GCCGATCTTCCGCCCAAT 60.203 61.111 0.00 0.00 0.00 3.16
7824 11205 1.932011 TTCCGCCCAATTGTGCATCG 61.932 55.000 13.43 4.74 0.00 3.84
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
74 75 3.061848 CAATGGTGGGACGGGTGC 61.062 66.667 0.00 0.00 0.00 5.01
88 89 0.114364 GGAGGTTGGGGTTGGTCAAT 59.886 55.000 0.00 0.00 0.00 2.57
90 91 2.824880 CGGAGGTTGGGGTTGGTCA 61.825 63.158 0.00 0.00 0.00 4.02
108 109 2.436646 CGTGGTGGGACTGGATGC 60.437 66.667 0.00 0.00 0.00 3.91
125 126 3.071206 TGGACCCTCTCTCGCTGC 61.071 66.667 0.00 0.00 0.00 5.25
143 144 2.862674 TTTGCATAGACCCGGTCCGC 62.863 60.000 14.32 14.41 32.18 5.54
316 328 2.606213 TGACATCTGGGCCCGTGA 60.606 61.111 23.76 21.04 0.00 4.35
317 329 2.124983 CTGACATCTGGGCCCGTG 60.125 66.667 19.37 18.18 0.00 4.94
355 367 4.069232 CCTCTCGCTTGACCGGCA 62.069 66.667 0.00 0.00 0.00 5.69
358 370 1.595993 TTCTCCCTCTCGCTTGACCG 61.596 60.000 0.00 0.00 0.00 4.79
392 405 4.145997 CGTTCGAAGTTTCAAAATACGGG 58.854 43.478 0.00 0.00 0.00 5.28
529 542 1.499007 TGAAAGGGGGCAGAGAAACTT 59.501 47.619 0.00 0.00 0.00 2.66
780 815 0.112218 CCACATTCCTGACCCCACAA 59.888 55.000 0.00 0.00 0.00 3.33
791 826 1.677820 CGTTAGGGTCCACCACATTCC 60.678 57.143 0.00 0.00 43.89 3.01
810 846 2.047844 CAGGACCTGCCACTGACG 60.048 66.667 8.99 0.00 40.02 4.35
831 867 1.202698 AGATAAATGCACTCCGCCCTC 60.203 52.381 0.00 0.00 41.33 4.30
832 868 0.839946 AGATAAATGCACTCCGCCCT 59.160 50.000 0.00 0.00 41.33 5.19
834 870 0.861837 CGAGATAAATGCACTCCGCC 59.138 55.000 0.00 0.00 41.33 6.13
838 874 1.789464 CTCGCCGAGATAAATGCACTC 59.211 52.381 8.82 0.00 0.00 3.51
839 875 1.858091 CTCGCCGAGATAAATGCACT 58.142 50.000 8.82 0.00 0.00 4.40
884 920 5.587043 CAGGGTTCTGTGTGTGTTTTTACTA 59.413 40.000 0.00 0.00 36.30 1.82
1210 1255 6.323739 GGAAATAGGAAATGGAATGCACCTAA 59.676 38.462 0.00 0.00 32.78 2.69
1260 1305 4.281525 TCAAGAAAACGAAAGGAAACGG 57.718 40.909 0.00 0.00 0.00 4.44
1262 1307 4.146443 CGCATCAAGAAAACGAAAGGAAAC 59.854 41.667 0.00 0.00 0.00 2.78
1272 1317 3.735240 TGCACAAATCGCATCAAGAAAAC 59.265 39.130 0.00 0.00 33.55 2.43
1305 1354 2.603560 GGCTAAAGAATCGACAACCTCG 59.396 50.000 0.00 0.00 44.44 4.63
1318 1367 7.669722 ACAAAATAACCAGATTCAGGCTAAAGA 59.330 33.333 0.00 0.00 0.00 2.52
1347 1396 4.340950 TGGATCCGGCCATTTTCTATTTTC 59.659 41.667 7.39 0.00 31.66 2.29
1351 1400 3.490348 CTTGGATCCGGCCATTTTCTAT 58.510 45.455 7.39 0.00 37.86 1.98
1604 1653 1.062810 GGCCTCCTCTTCCTCCTCTAA 60.063 57.143 0.00 0.00 0.00 2.10
1612 1661 1.209261 CTCTTTCTGGCCTCCTCTTCC 59.791 57.143 3.32 0.00 0.00 3.46
1681 1730 0.036577 GTGTCAGCAGCTCATCCAGT 60.037 55.000 0.00 0.00 0.00 4.00
1726 1775 3.773667 TGATCTGCTCCATCTTCTCAAGT 59.226 43.478 0.00 0.00 0.00 3.16
1772 1821 5.863935 GCAAGAAACCTAAAATGGTCATCAC 59.136 40.000 0.00 0.00 39.83 3.06
1980 2032 5.109903 ACAACCGAAGTATCTATGAAGCAC 58.890 41.667 0.00 0.00 0.00 4.40
2040 2092 7.776618 TCCATGTACATCGATTAGACCTTAT 57.223 36.000 5.07 0.00 0.00 1.73
2042 2094 6.672266 ATCCATGTACATCGATTAGACCTT 57.328 37.500 9.87 0.00 0.00 3.50
2043 2095 6.459066 CAATCCATGTACATCGATTAGACCT 58.541 40.000 23.01 3.44 29.57 3.85
2045 2097 5.928839 AGCAATCCATGTACATCGATTAGAC 59.071 40.000 23.01 16.71 29.57 2.59
2047 2099 6.791887 AAGCAATCCATGTACATCGATTAG 57.208 37.500 23.01 18.40 29.57 1.73
2048 2100 7.255104 GGAAAAGCAATCCATGTACATCGATTA 60.255 37.037 23.01 2.33 36.92 1.75
2053 2487 5.841957 AGGAAAAGCAATCCATGTACATC 57.158 39.130 5.07 0.00 39.55 3.06
2080 2514 8.919145 CAGATTACTGAGGGTAGTTAGAAGAAT 58.081 37.037 0.00 0.00 46.03 2.40
2081 2515 7.147880 GCAGATTACTGAGGGTAGTTAGAAGAA 60.148 40.741 0.00 0.00 46.03 2.52
2082 2516 6.321690 GCAGATTACTGAGGGTAGTTAGAAGA 59.678 42.308 0.00 0.00 46.03 2.87
2083 2517 6.461788 GGCAGATTACTGAGGGTAGTTAGAAG 60.462 46.154 0.00 0.00 46.03 2.85
2084 2518 5.363005 GGCAGATTACTGAGGGTAGTTAGAA 59.637 44.000 0.00 0.00 46.03 2.10
2085 2519 4.894114 GGCAGATTACTGAGGGTAGTTAGA 59.106 45.833 0.00 0.00 46.03 2.10
2086 2520 4.039366 GGGCAGATTACTGAGGGTAGTTAG 59.961 50.000 0.00 0.00 46.03 2.34
2087 2521 3.965347 GGGCAGATTACTGAGGGTAGTTA 59.035 47.826 0.00 0.00 46.03 2.24
2088 2522 2.772515 GGGCAGATTACTGAGGGTAGTT 59.227 50.000 0.00 0.00 46.03 2.24
2089 2523 2.399580 GGGCAGATTACTGAGGGTAGT 58.600 52.381 0.00 0.00 46.03 2.73
2090 2524 1.694696 GGGGCAGATTACTGAGGGTAG 59.305 57.143 0.00 0.00 46.03 3.18
2091 2525 1.694693 GGGGGCAGATTACTGAGGGTA 60.695 57.143 0.00 0.00 46.03 3.69
2092 2526 0.988678 GGGGGCAGATTACTGAGGGT 60.989 60.000 0.00 0.00 46.03 4.34
2093 2527 0.695803 AGGGGGCAGATTACTGAGGG 60.696 60.000 0.00 0.00 46.03 4.30
2094 2528 0.761802 GAGGGGGCAGATTACTGAGG 59.238 60.000 0.00 0.00 46.03 3.86
2095 2529 1.415659 CAGAGGGGGCAGATTACTGAG 59.584 57.143 0.00 0.00 46.03 3.35
2096 2530 1.500474 CAGAGGGGGCAGATTACTGA 58.500 55.000 0.00 0.00 46.03 3.41
2097 2531 0.179034 GCAGAGGGGGCAGATTACTG 60.179 60.000 0.00 0.00 45.91 2.74
2098 2532 0.327000 AGCAGAGGGGGCAGATTACT 60.327 55.000 0.00 0.00 0.00 2.24
2099 2533 0.107643 GAGCAGAGGGGGCAGATTAC 59.892 60.000 0.00 0.00 0.00 1.89
2100 2534 1.056700 GGAGCAGAGGGGGCAGATTA 61.057 60.000 0.00 0.00 0.00 1.75
2101 2535 2.381941 GGAGCAGAGGGGGCAGATT 61.382 63.158 0.00 0.00 0.00 2.40
2102 2536 2.771762 GGAGCAGAGGGGGCAGAT 60.772 66.667 0.00 0.00 0.00 2.90
2107 2541 2.243774 TACTGAGGGAGCAGAGGGGG 62.244 65.000 0.00 0.00 39.20 5.40
2108 2542 0.325671 TTACTGAGGGAGCAGAGGGG 60.326 60.000 0.00 0.00 39.20 4.79
2109 2543 1.691434 GATTACTGAGGGAGCAGAGGG 59.309 57.143 0.00 0.00 39.20 4.30
2110 2544 2.364970 CAGATTACTGAGGGAGCAGAGG 59.635 54.545 0.00 0.00 46.03 3.69
2111 2545 3.295093 TCAGATTACTGAGGGAGCAGAG 58.705 50.000 0.00 0.00 46.55 3.35
2112 2546 3.388552 TCAGATTACTGAGGGAGCAGA 57.611 47.619 0.00 0.00 46.55 4.26
2123 2557 8.926710 CGTTTCATTTTCAGTAGTCAGATTACT 58.073 33.333 0.00 0.00 0.00 2.24
2124 2558 8.709646 ACGTTTCATTTTCAGTAGTCAGATTAC 58.290 33.333 0.00 0.00 0.00 1.89
2125 2559 8.827177 ACGTTTCATTTTCAGTAGTCAGATTA 57.173 30.769 0.00 0.00 0.00 1.75
2126 2560 7.730364 ACGTTTCATTTTCAGTAGTCAGATT 57.270 32.000 0.00 0.00 0.00 2.40
2541 2975 6.371548 GTGTTCCACATAAGATAGCAAACAGA 59.628 38.462 0.00 0.00 34.08 3.41
3266 3773 2.459644 TCCAAGAATCCTGGCAAATGG 58.540 47.619 0.00 0.00 0.00 3.16
3662 4805 1.139989 CAGTGTCAGGTACGCAACAG 58.860 55.000 0.00 0.00 41.29 3.16
3744 4887 9.236006 GTGAACAATGCTCTTATATTATGGGAT 57.764 33.333 0.00 0.00 0.00 3.85
3762 4905 8.029522 CACTAGTATCAGTGTAGTGTGAACAAT 58.970 37.037 9.43 0.00 40.89 2.71
3805 4948 4.475747 ACTCCCTCCGTCCCATAAAATAAA 59.524 41.667 0.00 0.00 0.00 1.40
3817 4960 6.814043 ACATAAAAATAGTACTCCCTCCGTC 58.186 40.000 0.00 0.00 0.00 4.79
3859 5002 3.702330 TCGGTATACATCTGAGCAAACG 58.298 45.455 5.01 0.00 0.00 3.60
3930 5341 8.936864 ACATAAAGTACTCAGGAAGAAAAATCG 58.063 33.333 0.00 0.00 0.00 3.34
4295 5734 8.261492 ACTATTTACTTCTGCACAGATTGAAG 57.739 34.615 9.01 9.01 40.97 3.02
4979 6481 8.325421 AGATGCTAAATCAATCATGACATCTC 57.675 34.615 11.74 0.00 38.80 2.75
5098 6635 0.678950 TGTCAGCGGAGATTGTGACA 59.321 50.000 0.00 0.00 45.39 3.58
5164 6722 8.481492 TTCTATATGGACAAGGACCGTATTTA 57.519 34.615 0.00 0.00 39.44 1.40
5165 6723 6.989155 TCTATATGGACAAGGACCGTATTT 57.011 37.500 0.00 0.00 39.44 1.40
5421 7277 4.303257 GGCAGTGCCTGGTAAGAC 57.697 61.111 27.48 0.00 46.69 3.01
5535 7404 5.127031 TGCCAAATTAGTCAGCTTTATTCCC 59.873 40.000 0.00 0.00 0.00 3.97
5584 7455 3.761897 TGTGGAACATGGTAAAGAAGGG 58.238 45.455 0.00 0.00 45.67 3.95
6053 8510 7.989741 ACCATAAGAACAATTCATCTGGACTAG 59.010 37.037 5.53 0.00 31.77 2.57
6216 8728 4.564782 TCTGAGGATTCTGCAGAACAAT 57.435 40.909 30.66 18.61 35.87 2.71
6308 8820 5.066893 CCATACCTCAACAGAATTGGATGTG 59.933 44.000 0.00 0.00 0.00 3.21
6391 9046 0.605319 TGATCCGTCCCTGCAACAAC 60.605 55.000 0.00 0.00 0.00 3.32
6454 9109 1.492993 GCTGGAACTGTCCCTTCCCT 61.493 60.000 0.00 0.00 44.23 4.20
6530 9185 3.753294 AACAGAGTCCACAAGTAGGTG 57.247 47.619 0.00 0.00 38.52 4.00
6531 9186 5.046520 GGATAAACAGAGTCCACAAGTAGGT 60.047 44.000 0.00 0.00 32.23 3.08
6592 9469 3.067106 TCCTGCATTTTCGACAGAAGAC 58.933 45.455 1.78 0.00 37.70 3.01
6594 9471 2.417933 CCTCCTGCATTTTCGACAGAAG 59.582 50.000 1.78 0.00 37.70 2.85
6597 9501 1.089920 CCCTCCTGCATTTTCGACAG 58.910 55.000 0.00 0.00 0.00 3.51
6617 9521 3.704207 AGAAGCGCCAGCAGCTCT 61.704 61.111 2.29 6.21 45.31 4.09
6803 9713 2.280457 GCTGAGAGCATACCGCCC 60.280 66.667 0.00 0.00 44.04 6.13
6809 9719 1.322538 TGGTGAGCGCTGAGAGCATA 61.323 55.000 18.48 0.00 42.58 3.14
6897 9807 3.039588 GGCGACGAACAAAGCCGA 61.040 61.111 0.00 0.00 40.17 5.54
6997 9910 0.880278 CAGTACACACTGCAACGCCT 60.880 55.000 0.00 0.00 45.44 5.52
7015 9928 2.263895 AATCTAGGGGGTGCAGTACA 57.736 50.000 0.00 0.00 0.00 2.90
7016 9929 2.633481 CCTAATCTAGGGGGTGCAGTAC 59.367 54.545 0.00 0.00 42.42 2.73
7017 9930 2.520980 TCCTAATCTAGGGGGTGCAGTA 59.479 50.000 0.00 0.00 46.24 2.74
7018 9931 1.294068 TCCTAATCTAGGGGGTGCAGT 59.706 52.381 0.00 0.00 46.24 4.40
7019 9932 1.974236 CTCCTAATCTAGGGGGTGCAG 59.026 57.143 0.00 0.00 43.04 4.41
7106 10019 5.990996 AGTCTTACATAGCTACTAGGTCGTC 59.009 44.000 0.00 0.00 33.05 4.20
7108 10021 6.225318 AGAGTCTTACATAGCTACTAGGTCG 58.775 44.000 0.00 0.00 33.05 4.79
7109 10022 9.729281 ATAAGAGTCTTACATAGCTACTAGGTC 57.271 37.037 14.82 0.00 33.05 3.85
7131 10044 5.836821 TCAGCACAGACTACTACCATAAG 57.163 43.478 0.00 0.00 0.00 1.73
7162 10078 1.007118 TGGGGTAGCAGTCTCATCTCA 59.993 52.381 0.00 0.00 0.00 3.27
7165 10081 1.490574 ACTGGGGTAGCAGTCTCATC 58.509 55.000 0.00 0.00 0.00 2.92
7216 10132 4.760204 ACGGTCCACAGAAAAATAAGAAGG 59.240 41.667 0.00 0.00 0.00 3.46
7251 10596 3.300711 GTGTTCGCCTACACTTGGT 57.699 52.632 8.35 0.00 43.92 3.67
7319 10664 6.115448 ACTGTCCTTTACTTACTGCTGATT 57.885 37.500 0.00 0.00 0.00 2.57
7325 10670 8.336806 CGTATCTCTACTGTCCTTTACTTACTG 58.663 40.741 0.00 0.00 0.00 2.74
7504 10883 9.899226 GTCCTAAAGGCAGCAAATTAATATTAG 57.101 33.333 0.00 0.00 34.44 1.73
7528 10907 7.149288 CGAATCAACGAAATCAGTTTTTCTGTC 60.149 37.037 0.00 0.00 39.10 3.51
7546 10925 1.225376 TGCCACACGGTCGAATCAAC 61.225 55.000 0.00 0.00 33.28 3.18
7598 10979 6.894828 TCATTATCATCATCAAGCACAATCG 58.105 36.000 0.00 0.00 0.00 3.34
7643 11024 4.105486 GTTTCTTCAGTTCTTTGCCACAC 58.895 43.478 0.00 0.00 0.00 3.82
7644 11025 3.130340 GGTTTCTTCAGTTCTTTGCCACA 59.870 43.478 0.00 0.00 0.00 4.17
7652 11033 7.655490 CAAGATGATTTGGTTTCTTCAGTTCT 58.345 34.615 0.00 0.00 0.00 3.01
7690 11071 8.734386 AGACTGTTTTTGGATAAAGATGTGATC 58.266 33.333 0.00 0.00 0.00 2.92
7726 11107 5.239525 GGAGAAATAGACACTTGCACAGTTT 59.760 40.000 0.00 0.00 30.92 2.66
7731 11112 2.673368 CCGGAGAAATAGACACTTGCAC 59.327 50.000 0.00 0.00 0.00 4.57
7745 11126 0.387622 CGCGACTTGTAACCGGAGAA 60.388 55.000 9.46 0.00 0.00 2.87
7750 11131 2.468532 GTGCGCGACTTGTAACCG 59.531 61.111 12.10 0.00 0.00 4.44
7765 11146 3.958147 ATGACGGGCTGAAGCGGTG 62.958 63.158 0.00 0.00 43.26 4.94
7768 11149 1.424493 GAAGATGACGGGCTGAAGCG 61.424 60.000 0.00 0.00 43.26 4.68
7774 11155 0.326264 AAGCTTGAAGATGACGGGCT 59.674 50.000 0.00 0.00 0.00 5.19
7775 11156 1.936547 CTAAGCTTGAAGATGACGGGC 59.063 52.381 9.86 0.00 0.00 6.13
7784 11165 0.811616 ATCGGCGGCTAAGCTTGAAG 60.812 55.000 9.86 0.00 37.29 3.02
7785 11166 0.810031 GATCGGCGGCTAAGCTTGAA 60.810 55.000 9.86 0.00 37.29 2.69
7789 11170 1.068250 GAAGATCGGCGGCTAAGCT 59.932 57.895 7.21 0.00 37.29 3.74
7799 11180 0.748005 ACAATTGGGCGGAAGATCGG 60.748 55.000 10.83 0.00 0.00 4.18
7809 11190 0.100503 GGTACGATGCACAATTGGGC 59.899 55.000 26.01 26.01 46.69 5.36


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.